Aliases for USP31 Gene

Aliases for USP31 Gene

  • Ubiquitin Specific Peptidase 31 2 3 5
  • Ubiquitin-Specific-Processing Protease 31 3 4
  • Ubiquitin Carboxyl-Terminal Hydrolase 31 3 4
  • Deubiquitinating Enzyme 31 3 4
  • Ubiquitin Thioesterase 31 3 4
  • KIAA1203 2 4
  • Ubiquitin Specific Proteinase 31 3
  • Ubiquitin Specific Protease 31 2
  • Ubiquitin Thiolesterase 31 3
  • EC 4
  • EC 51
  • USP31 5

External Ids for USP31 Gene

Previous GeneCards Identifiers for USP31 Gene

  • GC01M021151
  • GC01M021474
  • GC16M023045
  • GC16M022986
  • GC16M021162

Summaries for USP31 Gene

GeneCards Summary for USP31 Gene

USP31 (Ubiquitin Specific Peptidase 31) is a Protein Coding gene. Among its related pathways are Ubiquitin-Proteasome Dependent Proteolysis. Gene Ontology (GO) annotations related to this gene include cysteine-type endopeptidase activity and thiol-dependent ubiquitinyl hydrolase activity. An important paralog of this gene is USP43.

UniProtKB/Swiss-Prot Summary for USP31 Gene

  • May recognize and hydrolyze the peptide bond at the C-terminal Gly of ubiquitin. Involved in the processing of poly-ubiquitin precursors as well as that of ubiquitinated proteins (By similarity).

Additional gene information for USP31 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for USP31 Gene

Genomics for USP31 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for USP31 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH16J023141 Promoter/Enhancer 1.9 Ensembl ENCODE CraniofacialAtlas dbSUPER 20.6 +3.5 3460 9.1 SP1 HNRNPL CREB1 GATAD2A PRDM10 ZNF629 REST TFE3 SIX5 IKZF1 USP31 NPIPB5 COG7 PALB2 SMG1P1 ENSG00000260635 ENSG00000260751 POLR3E SCNN1G ENSG00000260905
GH16J023182 Promoter/Enhancer 1.5 EPDnew Ensembl ENCODE 14.5 -33.9 -33900 2.4 CTCF TEAD4 PRDM10 KDM1A FOXA1 LARP7 ZNF143 ZIC2 REST RAD21 SCNN1G USP31 ENSG00000261723 NPIPB5 PALB2 ENSG00000260905 MFSD13B SCNN1B GGA2 ENSG00000260635
GH16J023103 Enhancer 1.1 Ensembl ENCODE 20.3 +44.9 44863 1.3 GATAD2A REST TFE3 NFKBIZ RCOR2 RXRB IRF2 SP1 CEBPA FOXK2 USP31 piR-31534-239 piR-32214-248 LOC107984851
GH16J023123 Enhancer 1 Ensembl ENCODE dbSUPER 19.9 +23.8 23802 3.8 ZNF629 ZNF692 ZNF600 SCRT2 ZBTB20 JUND NR3C1 FOS FOSL2 ZNF18 USP31 piR-61770 LOC107984851
GH16J023119 Enhancer 0.9 Ensembl ENCODE dbSUPER 20.3 +28.7 28700 4 PRDM10 ZSCAN5C ZBTB17 RBM22 ZNF184 ZNF146 PRDM6 POLR2A PKNOX1 USP31 piR-61770 LOC107984851
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around USP31 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for USP31

Top Transcription factor binding sites by QIAGEN in the USP31 gene promoter:
  • AP-4
  • Meis-1
  • Meis-1a
  • Meis-1b
  • NF-kappaB1
  • Nkx2-5
  • Pax-2
  • SREBP-1a
  • SREBP-1b
  • SREBP-1c

Genomic Locations for USP31 Gene

Genomic Locations for USP31 Gene
87,896 bases
Minus strand
87,865 bases
Minus strand

Genomic View for USP31 Gene

Genes around USP31 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
USP31 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for USP31 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for USP31 Gene

Proteins for USP31 Gene

  • Protein details for USP31 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 31
    Protein Accession:
    Secondary Accessions:
    • Q6AW97
    • Q6ZTC0
    • Q6ZTN2
    • Q9ULL7

    Protein attributes for USP31 Gene

    1352 amino acids
    Molecular mass:
    146651 Da
    Quaternary structure:
    No Data Available
    • Sequence=AK126752; Type=Frameshift; Evidence={ECO:0000305};

    Alternative splice isoforms for USP31 Gene


neXtProt entry for USP31 Gene

Selected DME Specific Peptides for USP31 Gene


Post-translational modifications for USP31 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for USP31 Gene

Domains & Families for USP31 Gene

Gene Families for USP31 Gene

Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Protein Domains for USP31 Gene

  • Ubiquitin thiolesterase, family 2

Suggested Antigen Peptide Sequences for USP31 Gene

GenScript: Design optimal peptide antigens:
  • Ubiquitin-specific-processing protease 31 (UBP31_HUMAN)

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the peptidase C19 family.
  • Belongs to the peptidase C19 family.
genes like me logo Genes that share domains with USP31: view

Function for USP31 Gene

Molecular function for USP31 Gene

UniProtKB/Swiss-Prot Function:
May recognize and hydrolyze the peptide bond at the C-terminal Gly of ubiquitin. Involved in the processing of poly-ubiquitin precursors as well as that of ubiquitinated proteins (By similarity).
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).; EC=;.

Enzyme Numbers (IUBMB) for USP31 Gene

Phenotypes From GWAS Catalog for USP31 Gene

Gene Ontology (GO) - Molecular Function for USP31 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004843 thiol-dependent ubiquitin-specific protease activity IDA --
GO:0008233 peptidase activity IEA --
GO:0008234 cysteine-type peptidase activity IEA --
GO:0016787 hydrolase activity IEA --
GO:0036459 thiol-dependent ubiquitinyl hydrolase activity IEA --
genes like me logo Genes that share ontologies with USP31: view
genes like me logo Genes that share phenotypes with USP31: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for USP31

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for USP31 Gene

Localization for USP31 Gene

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for USP31 gene
Compartment Confidence
nucleus 5
cytosol 3
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for USP31 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
genes like me logo Genes that share ontologies with USP31: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for USP31 Gene

Pathways & Interactions for USP31 Gene

PathCards logo

SuperPathways for USP31 Gene

SuperPathway Contained pathways
1 Ubiquitin-Proteasome Dependent Proteolysis
genes like me logo Genes that share pathways with USP31: view

Pathways by source for USP31 Gene

1 Qiagen pathway for USP31 Gene
  • Ubiquitin-Proteasome Dependent Proteolysis

Gene Ontology (GO) - Biological Process for USP31 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006508 proteolysis IEA --
GO:0006511 ubiquitin-dependent protein catabolic process IEA --
GO:0016579 protein deubiquitination IEA,IDA --
genes like me logo Genes that share ontologies with USP31: view

No data available for SIGNOR curated interactions for USP31 Gene

Drugs & Compounds for USP31 Gene

No Compound Related Data Available

Transcripts for USP31 Gene

mRNA/cDNA for USP31 Gene

8 NCBI additional mRNA sequence :
3 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for USP31

Alternative Splicing Database (ASD) splice patterns (SP) for USP31 Gene

No ASD Table

Relevant External Links for USP31 Gene

GeneLoc Exon Structure for

Expression for USP31 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for USP31 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for USP31 Gene

This gene is overexpressed in Bone (51.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for USP31 Gene

Protein tissue co-expression partners for USP31 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for USP31

SOURCE GeneReport for Unigene cluster for USP31 Gene:


mRNA Expression by UniProt/SwissProt for USP31 Gene:

Tissue specificity: Widely expressed.

Evidence on tissue expression from TISSUES for USP31 Gene

  • Nervous system(4.6)
genes like me logo Genes that share expression patterns with USP31: view

Primer Products

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for USP31 Gene

Orthologs for USP31 Gene

This gene was present in the common ancestor of animals.

Orthologs for USP31 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia USP31 30 31
  • 98.87 (n)
(Canis familiaris)
Mammalia USP31 30 31
  • 91.27 (n)
(Bos Taurus)
Mammalia USP31 30 31
  • 88.99 (n)
(Mus musculus)
Mammalia Usp31 30 17 31
  • 87.16 (n)
(Rattus norvegicus)
Mammalia Usp31 30
  • 86.81 (n)
(Monodelphis domestica)
Mammalia USP31 31
  • 82 (a)
(Ornithorhynchus anatinus)
Mammalia -- 31
  • 81 (a)
-- 31
  • 71 (a)
(Gallus gallus)
Aves USP31 30 31
  • 74.27 (n)
(Anolis carolinensis)
Reptilia USP31 31
  • 69 (a)
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia usp31 30
  • 64.65 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.32851 30
(Danio rerio)
Actinopterygii usp31 30
  • 63.36 (n)
USP31 31
  • 61 (a)
Fruit Fly
(Drosophila melanogaster)
Insecta CG30421 31
  • 26 (a)
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 40 (a)
Species where no ortholog for USP31 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for USP31 Gene

Gene Tree for USP31 (if available)
Gene Tree for USP31 (if available)
Evolutionary constrained regions (ECRs) for USP31: view image

Paralogs for USP31 Gene

(3) SIMAP similar genes for USP31 Gene using alignment to 2 proteins:

  • I3L4X5_HUMAN
genes like me logo Genes that share paralogs with USP31: view

Variants for USP31 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for USP31 Gene

SNP ID Clinical significance and condition Chr 16 pos Variation AA Info Type
rs10083789 - p.Arg931Leu
rs13339649 - p.Ile538Thr
rs1978066 - p.Asp445Tyr
rs35254998 - p.Arg1309Cys
rs35541113 - p.Asp1269Asn

Additional dbSNP identifiers (rs#s) for USP31 Gene

Structural Variations from Database of Genomic Variants (DGV) for USP31 Gene

Variant ID Type Subtype PubMed ID
dgv1321n106 CNV deletion 24896259
dgv4954n54 CNV loss 21841781
dgv4955n54 CNV gain+loss 21841781
dgv4956n54 CNV loss 21841781
dgv4957n54 CNV gain 21841781
esv23899 CNV loss 19812545
nsv1071277 CNV deletion 25765185
nsv521703 CNV gain 19592680
nsv571674 CNV loss 21841781
nsv571687 CNV loss 21841781
nsv571688 CNV loss 21841781
nsv952954 CNV deletion 24416366

Variation tolerance for USP31 Gene

Residual Variation Intolerance Score: 14.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 12.22; 94.01% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for USP31 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for USP31 Gene

Disorders for USP31 Gene

Additional Disease Information for USP31

No disorders were found for USP31 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for USP31 Gene

Publications for USP31 Gene

  1. Human ubiquitin specific protease 31 is a deubiquitinating enzyme implicated in activation of nuclear factor-kappaB. (PMID: 16214042) Tzimas C … Hatzivassiliou EG (Cellular signalling 2006) 3 23
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  3. Cloning and enzymatic analysis of 22 novel human ubiquitin-specific proteases. (PMID: 14715245) Quesada V … López-Otín C (Biochemical and biophysical research communications 2004) 3 4
  4. Human and mouse proteases: a comparative genomic approach. (PMID: 12838346) Puente XS … López-Otín C (Nature reviews. Genetics 2003) 2 3
  5. Prediction of the coding sequences of unidentified human genes. XV. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10574462) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 1999) 3 4

Products for USP31 Gene

Sources for USP31 Gene